Dataset Information

Population genomics of C. melanopterus using target gene capture data: demographic inferences and conservation perspectives.

ABSTRACT: Population genetics studies on non-model organisms typically involve sampling few markers from multiple individuals. Next-generation sequencing approaches open up the possibility of sampling many more markers from fewer individuals to address the same questions. Here, we applied a target gene capture method to deep sequence ~1000 independent autosomal regions of a non-model organism, the blacktip reef shark (Carcharhinus melanopterus). We devised a sampling scheme based on the predictions of theoretical studies of metapopulations to show that sampling few individuals, but many loci, can be extremely informative to reconstruct the evolutionary history of species. We collected data from a single deme (SID) from Northern Australia and from a scattered sampling representing various locations throughout the Indian Ocean (SCD). We explored the genealogical signature of population dynamics detected from both sampling schemes using an ABC algorithm. We then contrasted these results with those obtained by fitting the data to a non-equilibrium finite island model. Both approaches supported an Nm value ~40, consistent with philopatry in this species. Finally, we demonstrate through simulation that metapopulations exhibit greater resilience to recent changes in effective size compared to unstructured populations. We propose an empirical approach to detect recent bottlenecks based on our sampling scheme.

SUBMITTER: Maisano Delser P

PROVIDER: S-EPMC5030670 | biostudies-literature | 2016 Sep

REPOSITORIES: biostudies-literature

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Population genomics of C. melanopterus using target gene capture data: demographic inferences and conservation perspectives.

Maisano Delser Pierpaolo P Corrigan Shannon S Hale Matthew M Li Chenhong C Veuille Michel M Planes Serge S Naylor Gavin G Mona Stefano S

Scientific reports 20160921

Population genetics studies on non-model organisms typically involve sampling few markers from multiple individuals. Next-generation sequencing approaches open up the possibility of sampling many more markers from fewer individuals to address the same questions. Here, we applied a target gene capture method to deep sequence ~1000 independent autosomal regions of a non-model organism, the blacktip reef shark (Carcharhinus melanopterus). We devised a sampling scheme based on the predictions of the ...[more]

PMID: 27651217

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Dataset Information

Population genomics of C. melanopterus using target gene capture data: demographic inferences and conservation perspectives.

Publications

Population genomics of C. melanopterus using target gene capture data: demographic inferences and conservation perspectives.

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